Aliases for LRRC20 Gene

Aliases for LRRC20 Gene

  • Leucine Rich Repeat Containing 20 2 3 5
  • Leucine-Rich Repeat-Containing Protein 20 3 4

External Ids for LRRC20 Gene

Previous GeneCards Identifiers for LRRC20 Gene

  • GC10M071404
  • GC10M071728
  • GC10M072058
  • GC10M066052

Summaries for LRRC20 Gene

GeneCards Summary for LRRC20 Gene

LRRC20 (Leucine Rich Repeat Containing 20) is a Protein Coding gene. Diseases associated with LRRC20 include Nephrolithiasis, Uric Acid.

Additional gene information for LRRC20 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for LRRC20 Gene

Genomics for LRRC20 Gene

GeneHancer (GH) Regulatory Elements for LRRC20 Gene

Promoters and enhancers for LRRC20 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH10J070380 Promoter/Enhancer 1.8 Ensembl ENCODE CraniofacialAtlas dbSUPER 516.3 +0.5 495 2.9 EP300 CTCF NRF1 POLR2G USF1 SP1 ZNF639 ZIC2 ZBTB10 ZBTB11 LRRC20 RF00017-687
GH10J070403 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 12.6 -22.5 -22529 3.6 FOXK2 HNRNPK ZBTB40 EP300 POLR2G SP1 NCOR1 GTF2E2 PHF8 TEAD4 EIF4EBP2 piR-34414 lnc-LRRC20-2 piR-56759-054 LRRC20 PALD1 NODAL ENSG00000280401
GH10J070231 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE CraniofacialAtlas 11.8 +149.3 149260 4.8 ZNF217 CTCF SIN3A NRF1 MYC USF1 POLR2G PHF8 JUND ZFX PPA1 lnc-H2AFY2-4 lnc-PPA1-1 SAR1A AIFM2 LRRC20 CEP57L1P1 EIF4EBP2 NPFFR1 lnc-NPFFR1-1
GH10J070362 Enhancer 1.5 Ensembl ENCODE CraniofacialAtlas dbSUPER 16.1 +19.0 19042 3.2 RXRA ZNF217 CTCF SP1 ZIC2 GABPA REST RFX1 TGIF2 RAD21 LRRC20 SAR1A RF00017-687
GH10J070376 Enhancer 1.2 Ensembl ENCODE dbSUPER 17.6 +4.7 4749 3 TCF12 JUND FOS ZNF639 ZNF623 KLF7 ATF2 ZEB1 OSR2 BCL11A LRRC20 RF00017-687
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around LRRC20 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for LRRC20

Top Transcription factor binding sites by QIAGEN in the LRRC20 gene promoter:
  • NRSF form 1
  • NRSF form 2

Genomic Locations for LRRC20 Gene

Genomic Locations for LRRC20 Gene
chr10:70,298,970-70,382,650
(GRCh38/hg38)
Size:
83,681 bases
Orientation:
Minus strand
chr10:72,058,729-72,142,382
(GRCh37/hg19)
Size:
83,654 bases
Orientation:
Minus strand

Genomic View for LRRC20 Gene

Genes around LRRC20 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LRRC20 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LRRC20 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LRRC20 Gene

Proteins for LRRC20 Gene

  • Protein details for LRRC20 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8TCA0-LRC20_HUMAN
    Recommended name:
    Leucine-rich repeat-containing protein 20
    Protein Accession:
    Q8TCA0
    Secondary Accessions:
    • Q5T6D4
    • Q5T6D6
    • Q9NVA6
    • Q9NVG3

    Protein attributes for LRRC20 Gene

    Size:
    184 amino acids
    Molecular mass:
    20509 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAA91849.1; Type=Erroneous termination; Note=Extended C-terminus.; Evidence={ECO:0000305};

    Alternative splice isoforms for LRRC20 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LRRC20 Gene

Post-translational modifications for LRRC20 Gene

  • Ubiquitination at Lys43
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for LRRC20 Gene

Domains & Families for LRRC20 Gene

Gene Families for LRRC20 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for LRRC20 Gene

Blocks:
  • Leucine-rich repeat signature
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for LRRC20 Gene

GenScript: Design optimal peptide antigens:
  • Leucine-rich repeat-containing protein 20 (LRC20_HUMAN)
genes like me logo Genes that share domains with LRRC20: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for LRRC20 Gene

Function for LRRC20 Gene

Phenotypes From GWAS Catalog for LRRC20 Gene

Gene Ontology (GO) - Molecular Function for LRRC20 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with LRRC20: view
genes like me logo Genes that share phenotypes with LRRC20: view

Animal Model Products

  • Taconic Biosciences Mouse Models for LRRC20

CRISPR Products

miRNA for LRRC20 Gene

miRTarBase miRNAs that target LRRC20

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LRRC20 Gene

Localization for LRRC20 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LRRC20 gene
Compartment Confidence
nucleus 3
cytosol 3
peroxisome 0

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleoplasm (2)
See all subcellular structures

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for LRRC20 Gene

Pathways & Interactions for LRRC20 Gene

PathCards logo

SuperPathways for LRRC20 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LRRC20 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for LRRC20 Gene

Drugs & Compounds for LRRC20 Gene

No Compound Related Data Available

Transcripts for LRRC20 Gene

mRNA/cDNA for LRRC20 Gene

7 REFSEQ mRNAs :
16 NCBI additional mRNA sequence :
7 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for LRRC20 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b ^ 3a · 3b · 3c ^ 4 ^ 5 ^ 6 ^ 7a · 7b · 7c · 7d · 7e · 7f
SP1: - - - - - -
SP2: - - - - -
SP3: - - -
SP4: - - - - - - -
SP5: - - - - - - -
SP6: - - - - - - -
SP7: - - - - - - - -
SP8: - - - - - - - -
SP9:
SP10: -

Relevant External Links for LRRC20 Gene

GeneLoc Exon Structure for
LRRC20

Expression for LRRC20 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for LRRC20 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for LRRC20 Gene

This gene is overexpressed in Muscle - Skeletal (x11.6).

Protein differential expression in normal tissues from HIPED for LRRC20 Gene

This gene is overexpressed in Tonsil (27.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for LRRC20 Gene



Protein tissue co-expression partners for LRRC20 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for LRRC20

SOURCE GeneReport for Unigene cluster for LRRC20 Gene:

Hs.7778

Evidence on tissue expression from TISSUES for LRRC20 Gene

  • Nervous system(3.4)
  • Muscle(2)
genes like me logo Genes that share expression patterns with LRRC20: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for LRRC20 Gene

Orthologs for LRRC20 Gene

This gene was present in the common ancestor of animals.

Orthologs for LRRC20 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LRRC20 31 30
  • 99.82 (n)
OneToOne
dog
(Canis familiaris)
Mammalia LRRC20 31 30
  • 90.58 (n)
OneToOne
cow
(Bos Taurus)
Mammalia LRRC20 31 30
  • 88.95 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Lrrc20 30
  • 86.41 (n)
mouse
(Mus musculus)
Mammalia Lrrc20 17 31 30
  • 84.6 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia LRRC20 31
  • 84 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia LRRC20 31
  • 76 (a)
OneToOne
chicken
(Gallus gallus)
Aves LRRC20 30
  • 70.97 (n)
lizard
(Anolis carolinensis)
Reptilia LRRC20 31
  • 72 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lrrc20 30
  • 58.33 (n)
zebrafish
(Danio rerio)
Actinopterygii lrrc20 31 30
  • 61.29 (n)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Sclp 31
  • 15 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea K08E7.8 31
  • 25 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 28 (a)
OneToOne
Species where no ortholog for LRRC20 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for LRRC20 Gene

ENSEMBL:
Gene Tree for LRRC20 (if available)
TreeFam:
Gene Tree for LRRC20 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for LRRC20: view image

Paralogs for LRRC20 Gene

No data available for Paralogs for LRRC20 Gene

Variants for LRRC20 Gene

Additional dbSNP identifiers (rs#s) for LRRC20 Gene

Structural Variations from Database of Genomic Variants (DGV) for LRRC20 Gene

Variant ID Type Subtype PubMed ID
dgv922n100 CNV gain 25217958
esv1000318 CNV deletion 20482838
esv1276689 CNV insertion 17803354
esv32737 CNV gain+loss 17666407
esv3623764 CNV loss 21293372
nsv1041698 CNV gain 25217958
nsv1042216 CNV gain 25217958
nsv1043245 CNV loss 25217958
nsv507560 OTHER sequence alteration 20534489
nsv831908 CNV gain 17160897

Variation tolerance for LRRC20 Gene

Residual Variation Intolerance Score: 44.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.19; 24.02% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LRRC20 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LRRC20

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for LRRC20 Gene

Disorders for LRRC20 Gene

MalaCards: The human disease database

(1) MalaCards diseases for LRRC20 Gene - From: DISEASES

Disorder Aliases PubMed IDs
nephrolithiasis, uric acid
  • nephrolithiasis, uric acid, susceptibility to
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for LRRC20

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with LRRC20: view

No data available for UniProtKB/Swiss-Prot and Genatlas for LRRC20 Gene

Publications for LRRC20 Gene

  1. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 41 54
  2. Trait-stratified genome-wide association study identifies novel and diverse genetic associations with serologic and cytokine phenotypes in systemic lupus erythematosus. (PMID: 20659327) Kariuki SN … Niewold TB (Arthritis research & therapy 2010) 3 41 54
  3. A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease. (PMID: 16385451) Grupe A … Goate A (American journal of human genetics 2006) 3 41 54
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 54
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 54

Products for LRRC20 Gene

Sources for LRRC20 Gene